Personal tools

Coexpression cluster:C788

From FANTOM5_SSTAR

Revision as of 11:31, 17 September 2013 by Autoedit (talk | contribs)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search


Full id: C788_umbilical_aorta_smooth_bladder_penis_colon_heart



Phase1 CAGE Peaks

Hg19::chr10:90694948..90695025,-p@chr10:90694948..90695025
-
Hg19::chr10:90713570..90713574,+p@chr10:90713570..90713574
+
Hg19::chr10:97181754..97181768,-p14@SORBS1
Hg19::chr13:111164792..111164826,+p@chr13:111164792..111164826
+
Hg19::chr1:10683041..10683058,+p@chr1:10683041..10683058
+
Hg19::chr3:78684991..78684993,-p@chr3:78684991..78684993
-
Hg19::chr4:186578715..186578746,-p27@SORBS2
Hg19::chr5:156810234..156810257,+p4@CYFIP2
Hg19::chr5:169805660..169805676,-p@chr5:169805660..169805676
-
Hg19::chr9:127270402..127270409,-p@chr9:127270402..127270409
-


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0005915zonula adherens0.0139351277842367
GO:0030054cell junction0.0139351277842367
GO:0043149stress fiber formation0.0139351277842367
GO:0001725stress fiber0.0139351277842367
GO:0032432actin filament bundle0.0139351277842367
GO:0048041focal adhesion formation0.0139351277842367
GO:0005913cell-cell adherens junction0.0139351277842367
GO:0051017actin filament bundle formation0.0159985789095684
GO:0005158insulin receptor binding0.0159985789095684
GO:0022610biological adhesion0.0159985789095684
GO:0007155cell adhesion0.0159985789095684
GO:0015758glucose transport0.0159985789095684
GO:0008645hexose transport0.0159985789095684
GO:0008286insulin receptor signaling pathway0.0159985789095684
GO:0015749monosaccharide transport0.0159985789095684
GO:0019717synaptosome0.0161784847753573
GO:0005924cell-substrate adherens junction0.0161784847753573
GO:0030055cell-matrix junction0.0161784847753573
GO:0007015actin filament organization0.0161784847753573
GO:0045121lipid raft0.017241358258977
GO:0005912adherens junction0.0192715116061175
GO:0048471perinuclear region of cytoplasm0.0217956935098357
GO:0016323basolateral plasma membrane0.0276716988629033
GO:0007160cell-matrix adhesion0.0280620941312236
GO:0032403protein complex binding0.0280620941312236
GO:0031589cell-substrate adhesion0.0280620941312236
GO:0043296apical junction complex0.0280620941312236
GO:0016327apicolateral plasma membrane0.0280620941312236
GO:0008643carbohydrate transport0.0286376253616859
GO:0044459plasma membrane part0.0367167446690375
GO:0005911intercellular junction0.0416776000298609
GO:0007169transmembrane receptor protein tyrosine kinase signaling pathway0.0489568766360709



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism2.20e-40114
male genital duct5.57e-133
internal male genitalia5.57e-133
duct of male reproductive system7.71e-104
male reproductive organ4.99e-0911
gastrointestinal system2.62e-0825
intestine2.09e-0717
compound organ9.78e-0768


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.00834483
MA0004.10.380329
MA0006.10.236135
MA0007.10.363007
MA0009.10.828613
MA0014.10.0216849
MA0017.10.270554
MA0019.10.520264
MA0024.10.725404
MA0025.10.960689
MA0027.12.43535
MA0028.10.25013
MA0029.10.744375
MA0030.10.733118
MA0031.10.669876
MA0038.10.477043
MA0040.10.750125
MA0041.10.397617
MA0042.10.367902
MA0043.10.828925
MA0046.10.817858
MA0048.10.0613414
MA0050.10.368721
MA0051.10.473017
MA0052.10.753928
MA0055.10.577037
MA0056.10
MA0057.10.211138
MA0058.10.293055
MA0059.10.291897
MA0060.10.138988
MA0061.10.377096
MA0063.10
MA0066.10.477449
MA0067.11.1435
MA0068.10.304755
MA0069.10.814052
MA0070.10.803003
MA0071.10.440254
MA0072.10.798564
MA0073.10.000128517
MA0074.10.4723
MA0076.10.307383
MA0077.11.85814
MA0078.10.568317
MA0081.10.79376
MA0083.10.836033
MA0084.11.32998
MA0087.10.79615
MA0088.10.126492
MA0089.10
MA0090.10.857892
MA0091.10.382762
MA0092.10.918839
MA0093.10.671378
MA0095.10
MA0098.10
MA0100.10.49029
MA0101.10.678051
MA0103.10.646502
MA0105.10.189717
MA0106.10.516528
MA0107.10.179177
MA0108.20.666881
MA0109.10
MA0111.10.885497
MA0113.10.532314
MA0114.10.174997
MA0115.11.06753
MA0116.10.536665
MA0117.10.865782
MA0119.10.277531
MA0122.10.891407
MA0124.11.0263
MA0125.10.942948
MA0130.10
MA0131.10.585907
MA0132.10
MA0133.10
MA0135.10.858623
MA0136.10.483775
MA0139.10.353333
MA0140.10.437738
MA0141.10.789887
MA0142.11.54256
MA0143.11.3186
MA0144.10.491079
MA0145.10.332712
MA0146.10.0169564
MA0147.10.184931
MA0148.11.04145
MA0149.10.428597
MA0062.20.114378
MA0035.20.437071
MA0039.20.0109452
MA0138.20.569505
MA0002.20.407187
MA0137.20.710884
MA0104.20.138396
MA0047.21.25985
MA0112.20.0329985
MA0065.20.147044
MA0150.10.315136
MA0151.10
MA0152.11.12912
MA0153.10.926242
MA0154.10.185581
MA0155.10.030416
MA0156.10.257809
MA0157.10.612166
MA0158.10
MA0159.10.544949
MA0160.10.417847
MA0161.10
MA0162.10.00711618
MA0163.10.0728181
MA0164.10.544294
MA0080.20.238846
MA0018.20.517858
MA0099.20.444294
MA0079.24.32523e-06
MA0102.21.36707
MA0258.10.155735
MA0259.10.191914
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

This analysis result is provided for C0 - C305 clusters.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C788&oldid=3067905"